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Athurva Gore/LabNotes/ExomeReseq/2009-5-13
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==Data== * Differentially expressed genes (from SAM): ILLUMINA_ID Gene Name Related Genes Species ILMN_1731745 ninjurin 2 RG Homo sapiens ILMN_1759087 olfactory receptor, family 10, subfamily v, member 1 RG Homo sapiens ILMN_1662021 hypothetical protein flj20403 similar to zinc finger protein 326 RG Homo sapiens ILMN_1702568 chromosome 9 open reading frame 28 RG Homo sapiens ILMN_1722855 vascular endothelial growth factor b RG Homo sapiens ILMN_1714980 mas-related gpr, member d RG Homo sapiens ILMN_1772387 toll-like receptor 2 RG Homo sapiens ILMN_1767233 ectodysplasin a2 receptor RG Homo sapiens ILMN_1795336 phosphotriesterase related RG Homo sapiens ILMN_1772727 g protein-coupled receptor 75 RG Homo sapiens ILMN_1679558 hypothetical protein flj20393 RG Homo sapiens ILMN_1780465 c-type lectin domain family 5, member a RG Homo sapiens ILMN_1743329 retinal pigment epithelium-derived rhodopsin homolog RG Homo sapiens ILMN_1752813 udp glucuronosyltransferase 1 family, polypeptide a6 RG Homo sapiens ILMN_1754553 mediator of rna polymerase ii transcription, subunit 19 homolog (yeast) RG Homo sapiens ILMN_1700766 flj45850 protein RG Homo sapiens ILMN_1736951 leucine-rich repeats and iq motif containing 2 RG Homo sapiens ILMN_1747683 aquaporin 4 RG Homo sapiens ILMN_1717579 chromosome 17 open reading frame 64 RG Homo sapiens ILMN_1708779 granulysin RG Homo sapiens ILMN_1764201 microtubule-associated protein 2 RG Homo sapiens ILMN_1724424 proline-rich transmembrane protein 2 RG Homo sapiens ILMN_1750234 protease, serine, 2 (trypsin 2) RG Homo sapiens ILMN_1726928 transcription elongation factor a (sii), 3 RG Homo sapiens ILMN_1752046 lymphocyte adaptor protein RG Homo sapiens ILMN_1717252 f-box and leucine-rich repeat protein 21 RG Homo sapiens ILMN_1680932 hypothetical protein flj12492 RG Homo sapiens ILMN_1709953 downstream neighbor of son RG Homo sapiens ILMN_1748338 g protein-coupled receptor 85 RG Homo sapiens ILMN_1700888 ectonucleotide pyrophosphatase/phosphodiesterase 1 RG Homo sapiens ILMN_1729433 lipase, member h RG Homo sapiens ILMN_1750497 g protein-coupled receptor 109a RG Homo sapiens ILMN_1757521 creatine kinase, muscle RG Homo sapiens ILMN_1706266 ring finger protein 157 RG Homo sapiens ILMN_1729203 protein disulfide isomerase-like protein of the testis RG Homo sapiens ILMN_1738849 solute carrier family 9 (sodium/hydrogen exchanger), member 2 RG Homo sapiens ILMN_1706590 myeloid/lymphoid or mixed-lineage leukemia (trithorax homolog, drosophila); translocated to, 1 RG Homo sapiens ILMN_1741371 transmembrane protein 8 (five membrane-spanning domains) RG Homo sapiens ILMN_1769538 flj36268 protein RG Homo sapiens ILMN_1718525 inter-alpha (globulin) inhibitor h4 (plasma kallikrein-sensitive glycoprotein) RG Homo sapiens ILMN_1732049 dolichyl-phosphate mannosyltransferase polypeptide 2, regulatory subunit RG Homo sapiens ILMN_1798957 chromosome 12 open reading frame 47 RG Homo sapiens ILMN_1699735 fibroblast growth factor 1 (acidic) RG Homo sapiens ILMN_1777658 scavenger receptor class f, member 1 RG Homo sapiens ILMN_1780172 chromosome 20 open reading frame 195 RG Homo sapiens ILMN_1722502 chaperonin containing tcp1, subunit 6a (zeta 1) RG Homo sapiens ILMN_1748884 transducer of erbb2, 2 RG Homo sapiens ILMN_1754489 f-box and leucine-rich repeat protein 20 RG Homo sapiens ILMN_1753648 tripartite motif-containing 51 RG Homo sapiens * GO Terms associated with this set: Category Term UP_SEQ_FEATURE repeat:LRR 3 UP_SEQ_FEATURE disulfide bond SP_PIR_KEYWORDS transducer GOTERM_BP_ALL GO:0009620~response to fungus GOTERM_CC_ALL GO:0005887~integral to plasma membrane UP_SEQ_FEATURE topological domain:Extracellular SP_PIR_KEYWORDS g-protein coupled receptor UP_SEQ_FEATURE topological domain:Cytoplasmic GOTERM_MF_ALL GO:0001871~pattern binding GOTERM_MF_ALL GO:0060089~molecular transducer activity UP_SEQ_FEATURE repeat:LRR 2 GOTERM_MF_ALL GO:0004930~G-protein coupled receptor activity UP_SEQ_FEATURE transmembrane region GOTERM_MF_ALL GO:0001584~rhodopsin-like receptor activity GOTERM_BP_ALL GO:0009410~response to xenobiotic stimulus SP_PIR_KEYWORDS glycoprotein SP_PIR_KEYWORDS membrane UP_SEQ_FEATURE repeat:LRR 1 SP_PIR_KEYWORDS mitogen SP_PIR_KEYWORDS receptor GOTERM_BP_ALL GO:0006805~xenobiotic metabolic process SP_PIR_KEYWORDS leucine-rich repeat GOTERM_CC_ALL GO:0031226~intrinsic to plasma membrane GOTERM_MF_ALL GO:0004888~transmembrane receptor activity GOTERM_CC_ALL GO:0031224~intrinsic to membrane PIR_SUPERFAMILY PIRSF036848:conserved protein with F-box/LRR-repeat, Skp2 type UP_SEQ_FEATURE glycosylation site:N-linked (GlcNAc...) SP_PIR_KEYWORDS transmembrane GOTERM_CC_ALL GO:0016021~integral to membrane GOTERM_MF_ALL GO:0004872~receptor activity INTERPRO IPR000276:Rhodopsin-like GPCR superfamily GOTERM_MF_ALL GO:0004871~signal transducer activity * '''FUNCTIONAL CATEGORIES''' (Important info here...) {| |Functional Group 1 |Median: 0.03711173039552113 |Geo: 0.039704364737313154 | | | | | | | | |---- |Category |Term |Count |PValue |List Total |Pop Hits |Pop Total |Fold Enrichment |Bonferroni |Benjamini |FDR |---- |UP_SEQ_FEATURE |transmembrane region |18 |0 |34 |3211 |12056 |1.99 |1 |1 |4.25 |---- |UP_SEQ_FEATURE |topological domain:Extracellular |14 |0 |34 |2092 |12056 |2.37 |1 |1 |4.8 |---- |SP_PIR_KEYWORDS |glycoprotein |18 |0 |43 |3807 |17599 |1.94 |0.99 |0.99 |6.87 |---- |GOTERM_MF_ALL |GO:0004888~transmembrane receptor activity |9 |0.01 |36 |1388 |16968 |3.06 |1 |1 |10.67 |---- |SP_PIR_KEYWORDS |transmembrane |19 |0.01 |43 |4452 |17599 |1.75 |1 |0.99 |14.35 |---- |UP_SEQ_FEATURE |topological domain:Cytoplasmic |14 |0.01 |34 |2554 |12056 |1.94 |1 |1 |25.03 |---- |GOTERM_MF_ALL |GO:0004872~receptor activity |10 |0.02 |36 |2113 |16968 |2.23 |1 |1 |35.83 |---- |UP_SEQ_FEATURE |glycosylation site:N-linked (GlcNAc...) |15 |0.03 |34 |3085 |12056 |1.72 |1 |1 |43.23 |---- |SP_PIR_KEYWORDS |membrane |20 |0.03 |43 |5272 |17599 |1.55 |1 |1 |34.08 |---- |GOTERM_MF_ALL |GO:0001584~rhodopsin-like receptor activity |6 |0.03 |36 |828 |16968 |3.42 |1 |1 |38.03 |---- |INTERPRO |IPR000276:Rhodopsin-like GPCR superfamily |6 |0.03 |42 |747 |17845 |3.41 |1 |1 |41.57 |---- |GOTERM_MF_ALL |GO:0060089~molecular transducer activity |11 |0.03 |36 |2557 |16968 |2.03 |1 |1 |41.96 |---- |GOTERM_MF_ALL |GO:0004871~signal transducer activity |11 |0.03 |36 |2557 |16968 |2.03 |1 |1 |41.96 |---- |GOTERM_MF_ALL |GO:0004930~G-protein coupled receptor activity |6 |0.04 |36 |953 |16968 |2.97 |1 |1 |55.63 |---- |SP_PIR_KEYWORDS |g-protein coupled receptor |6 |0.05 |43 |832 |17599 |2.95 |1 |1 |53.41 |---- |SP_PIR_KEYWORDS |receptor |9 |0.05 |43 |1731 |17599 |2.13 |1 |1 |55.46 |---- |SP_PIR_KEYWORDS |transducer |6 |0.06 |43 |881 |17599 |2.79 |1 |1 |60.93 |---- |GOTERM_CC_ALL |GO:0016021~integral to membrane |18 |0.07 |37 |5357 |15857 |1.44 |1 |1 |64.96 |---- |GOTERM_CC_ALL |GO:0031224~intrinsic to membrane |18 |0.07 |37 |5378 |15857 |1.43 |1 |1 |66.24 |---- |GOTERM_BP_ALL |GO:0007186~G-protein coupled receptor protein signaling pathway |6 |0.17 |40 |1155 |15360 |1.99 |1 |1 |96.91 |---- |GOTERM_CC_ALL |GO:0044425~membrane part |18 |0.17 |37 |6065 |15857 |1.27 |1 |1 |94.83 |---- |GOTERM_CC_ALL |GO:0005886~plasma membrane |11 |0.2 |37 |3314 |15857 |1.42 |1 |1 |97.13 |---- |GOTERM_CC_ALL |GO:0016020~membrane |20 |0.25 |37 |7262 |15857 |1.18 |1 |1 |98.84 |---- |GOTERM_BP_ALL |GO:0007166~cell surface receptor linked signal transduction |7 |0.34 |40 |1868 |15360 |1.44 |1 |1 |99.96 |---- |GOTERM_BP_ALL |GO:0007165~signal transduction |12 |0.35 |40 |3758 |15360 |1.23 |1 |1 |99.97 |---- |GOTERM_BP_ALL |GO:0007154~cell communication |12 |0.48 |40 |4123 |15360 |1.12 |1 |1 |100 |---- | | | | | | | | | | | |---- |Functional Group 2 |Median: 0.05315479858365215 |Geo: 0.043640878080478424 | | | | | | | | |---- |Category |Term |Count |PValue |List Total |Pop Hits |Pop Total |Fold Enrichment |Bonferroni |Benjamini |FDR |---- |SP_PIR_KEYWORDS |leucine-rich repeat |4 |0.02 |43 |256 |17599 |6.39 |1 |1 |30.99 |---- |UP_SEQ_FEATURE |repeat:LRR 3 |3 |0.05 |34 |132 |12056 |8.06 |1 |1 |67.41 |---- |UP_SEQ_FEATURE |repeat:LRR 2 |3 |0.06 |34 |140 |12056 |7.6 |1 |1 |71.3 |---- |UP_SEQ_FEATURE |repeat:LRR 1 |3 |0.06 |34 |140 |12056 |7.6 |1 |1 |71.3 |---- | | | | | | | | | | | |---- |Functional Group 3 |Median: 0.1336143269166979 |Geo: 0.12431956759597426 | | | | | | | | |---- |Category |Term |Count |PValue |List Total |Pop Hits |Pop Total |Fold Enrichment |Bonferroni |Benjamini |FDR |---- |GOTERM_CC_ALL |GO:0005887~integral to plasma membrane |7 |0.06 |37 |1246 |15857 |2.41 |1 |1 |61.39 |---- |GOTERM_CC_ALL |GO:0031226~intrinsic to plasma membrane |7 |0.06 |37 |1262 |15857 |2.38 |1 |1 |63.31 |---- |GOTERM_CC_ALL |GO:0005886~plasma membrane |11 |0.2 |37 |3314 |15857 |1.42 |1 |1 |97.13 |---- |GOTERM_CC_ALL |GO:0044459~plasma membrane part |7 |0.31 |37 |2037 |15857 |1.47 |1 |1 |99.71 |---- | | | | | | | | | | | |---- |Functional Group 4 |Median: 0.31357655372100196 |Geo: 0.294106233156399 | | | | | | | | |---- |Category |Term |Count |PValue |List Total |Pop Hits |Pop Total |Fold Enrichment |Bonferroni |Benjamini |FDR |---- |SP_PIR_KEYWORDS |cell adhesion |3 |0.23 |43 |386 |17599 |3.18 |1 |1 |98.59 |---- |GOTERM_BP_ALL |GO:0007155~cell adhesion |4 |0.31 |40 |774 |15360 |1.98 |1 |1 |99.93 |---- |GOTERM_BP_ALL |GO:0022610~biological adhesion |4 |0.31 |40 |774 |15360 |1.98 |1 |1 |99.93 |---- |GOTERM_BP_ALL |GO:0009653~anatomical structure morphogenesis |5 |0.32 |40 |1133 |15360 |1.69 |1 |1 |99.94 |---- | | | | | | | | | | | |---- |Functional Group 5 |Median: 0.2994000556276062 |Geo: 0.3722618330261535 | | | | | | | | |---- |Category |Term |Count |PValue |List Total |Pop Hits |Pop Total |Fold Enrichment |Bonferroni |Benjamini |FDR |---- |GOTERM_BP_ALL |GO:0009605~response to external stimulus |4 |0.22 |40 |644 |15360 |2.39 |1 |1 |99.21 |---- |GOTERM_BP_ALL |GO:0009611~response to wounding |3 |0.3 |40 |431 |15360 |2.67 |1 |1 |99.89 |---- |GOTERM_BP_ALL |GO:0006950~response to stress |3 |0.77 |40 |1081 |15360 |1.07 |1 |1 |100 |---- | | | | | | | | | | | |---- |Functional Group 6 |Median: 0.3688618227951922 |Geo: 0.37308799552587163 | | | | | | | | |---- |Category |Term |Count |PValue |List Total |Pop Hits |Pop Total |Fold Enrichment |Bonferroni |Benjamini |FDR |---- |GOTERM_BP_ALL |GO:0048856~anatomical structure development |9 |0.17 |40 |2153 |15360 |1.61 |1 |1 |97.25 |---- |GOTERM_BP_ALL |GO:0009888~tissue development |3 |0.21 |40 |339 |15360 |3.4 |1 |1 |98.96 |---- |GOTERM_BP_ALL |GO:0048731~system development |7 |0.29 |40 |1760 |15360 |1.53 |1 |1 |99.84 |---- |GOTERM_BP_ALL |GO:0032502~developmental process |11 |0.31 |40 |3262 |15360 |1.29 |1 |1 |99.91 |---- |GOTERM_BP_ALL |GO:0032501~multicellular organismal process |12 |0.35 |40 |3759 |15360 |1.23 |1 |1 |99.97 |---- |GOTERM_BP_ALL |GO:0007275~multicellular organismal development |8 |0.39 |40 |2349 |15360 |1.31 |1 |1 |99.99 |---- |GOTERM_BP_ALL |GO:0048513~organ development |5 |0.41 |40 |1282 |15360 |1.5 |1 |1 |100 |---- |GOTERM_BP_ALL |GO:0007399~nervous system development |3 |0.6 |40 |780 |15360 |1.48 |1 |1 |100 |---- |GOTERM_BP_ALL |GO:0048869~cellular developmental process |5 |0.7 |40 |1835 |15360 |1.05 |1 |1 |100 |---- |GOTERM_BP_ALL |GO:0030154~cell differentiation |5 |0.7 |40 |1835 |15360 |1.05 |1 |1 |100 |---- | | | | | | | | | | | |---- |Functional Group 7 |Median: 0.36781428439882924 |Geo: 0.40941510044660673 | | | | | | | | |---- |Category |Term |Count |PValue |List Total |Pop Hits |Pop Total |Fold Enrichment |Bonferroni |Benjamini |FDR |---- |GOTERM_CC_ALL |GO:0005615~extracellular space |3 |0.33 |37 |521 |15857 |2.47 |1 |1 |99.81 |---- |GOTERM_CC_ALL |GO:0005576~extracellular region |5 |0.37 |37 |1350 |15857 |1.59 |1 |1 |99.92 |---- |GOTERM_CC_ALL |GO:0044421~extracellular region part |3 |0.56 |37 |819 |15857 |1.57 |1 |1 |100 |---- | | | | | | | | | | | |---- |Functional Group 8 |Median: 0.4245273768008249 |Geo: 0.4297118369268503 | | | | | | | | |---- |Category |Term |Count |PValue |List Total |Pop Hits |Pop Total |Fold Enrichment |Bonferroni |Benjamini |FDR |---- |GOTERM_CC_ALL |GO:0005576~extracellular region |5 |0.37 |37 |1350 |15857 |1.59 |1 |1 |99.92 |---- |SP_PIR_KEYWORDS |signal |9 |0.4 |43 |2919 |17599 |1.26 |1 |1 |99.97 |---- |SP_PIR_KEYWORDS |Secreted |5 |0.45 |43 |1440 |17599 |1.42 |1 |1 |99.99 |---- |UP_SEQ_FEATURE |signal peptide |8 |0.52 |34 |2447 |12056 |1.16 |1 |1 |100 |---- | | | | | | | | | | | |---- |Functional Group 9 |Median: 0.3631068152753514 |Geo: 0.45212872922107583 | | | | | | | | |---- |Category |Term |Count |PValue |List Total |Pop Hits |Pop Total |Fold Enrichment |Bonferroni |Benjamini |FDR |---- |GOTERM_BP_ALL |GO:0009653~anatomical structure morphogenesis |5 |0.32 |40 |1133 |15360 |1.69 |1 |1 |99.94 |---- |GOTERM_BP_ALL |GO:0032989~cellular structure morphogenesis |3 |0.36 |40 |499 |15360 |2.31 |1 |1 |99.98 |---- |GOTERM_BP_ALL |GO:0000902~cell morphogenesis |3 |0.36 |40 |499 |15360 |2.31 |1 |1 |99.98 |---- |GOTERM_BP_ALL |GO:0016043~cellular component organization and biogenesis |4 |0.98 |40 |2723 |15360 |0.56 |1 |1 |100 |---- | | | | | | | | | | | |---- |Functional Group 10 |Median: 0.5734687246608097 |Geo: 0.5127166515642717 | | | | | | | | |---- |Category |Term |Count |PValue |List Total |Pop Hits |Pop Total |Fold Enrichment |Bonferroni |Benjamini |FDR |---- |GOTERM_BP_ALL |GO:0000074~regulation of progression through cell cycle |3 |0.39 |40 |526 |15360 |2.19 |1 |1 |99.99 |---- |GOTERM_BP_ALL |GO:0051726~regulation of cell cycle |3 |0.39 |40 |529 |15360 |2.18 |1 |1 |99.99 |---- |GOTERM_BP_ALL |GO:0022402~cell cycle process |3 |0.57 |40 |749 |15360 |1.54 |1 |1 |100 |---- |GOTERM_BP_ALL |GO:0008283~cell proliferation |3 |0.61 |40 |796 |15360 |1.45 |1 |1 |100 |---- |GOTERM_BP_ALL |GO:0007049~cell cycle |3 |0.67 |40 |894 |15360 |1.29 |1 |1 |100 |---- | | | | | | | | | | | |---- |Functional Group 11 |Median: 0.9605162482170493 |Geo: 0.6129377540659845 | | | | | | | | |---- |Category |Term |Count |PValue |List Total |Pop Hits |Pop Total |Fold Enrichment |Bonferroni |Benjamini |FDR |---- |GOTERM_CC_ALL |GO:0016020~membrane |20 |0.25 |37 |7262 |15857 |1.18 |1 |1 |98.84 |---- |GOTERM_CC_ALL |GO:0044464~cell part |33 |0.96 |37 |15019 |15857 |0.94 |1 |1 |100 |---- |GOTERM_CC_ALL |GO:0005623~cell |33 |0.96 |37 |15020 |15857 |0.94 |1 |1 |100 |---- | | | | | | | | | | | |---- |Functional Group 12 |Median: 0.7836410046532671 |Geo: 0.7488370592269121 | | | | | | | | |---- |Category |Term |Count |PValue |List Total |Pop Hits |Pop Total |Fold Enrichment |Bonferroni |Benjamini |FDR |---- |GOTERM_BP_ALL |GO:0009056~catabolic process |3 |0.57 |40 |746 |15360 |1.54 |1 |1 |100 |---- |SP_PIR_KEYWORDS |hydrolase |4 |0.67 |43 |1422 |17599 |1.15 |1 |1 |100 |---- |GOTERM_MF_ALL |GO:0016787~hydrolase activity |4 |0.9 |36 |2438 |16968 |0.77 |1 |1 |100 |---- |GOTERM_MF_ALL |GO:0003824~catalytic activity |10 |0.92 |36 |5976 |16968 |0.79 |1 |1 |100 |---- | | | | | | | | | | | |---- |Functional Group 13 |Median: 0.9968215046691112 |Geo: 0.8265131236074682 | | | | | | | | |---- |Category |Term |Count |PValue |List Total |Pop Hits |Pop Total |Fold Enrichment |Bonferroni |Benjamini |FDR |---- |GOTERM_CC_ALL |GO:0005783~endoplasmic reticulum |3 |0.57 |37 |827 |15857 |1.55 |1 |1 |100 |---- |GOTERM_CC_ALL |GO:0005737~cytoplasm |8 |1 |37 |6219 |15857 |0.55 |1 |1 |100 |---- |GOTERM_CC_ALL |GO:0044444~cytoplasmic part |3 |1 |37 |3717 |15857 |0.35 |1 |1 |100 |---- | | | | | | | | | | | |---- |Functional Group 14 |Median: 0.8759330074668149 |Geo: 0.8575501630938809 | | | | | | | | |---- |Category |Term |Count |PValue |List Total |Pop Hits |Pop Total |Fold Enrichment |Bonferroni |Benjamini |FDR |---- |GOTERM_BP_ALL |GO:0050794~regulation of cellular process |12 |0.59 |40 |4422 |15360 |1.04 |1 |1 |100 |---- |GOTERM_BP_ALL |GO:0065007~biological regulation |14 |0.6 |40 |5238 |15360 |1.03 |1 |1 |100 |---- |SP_PIR_KEYWORDS |metal-binding |7 |0.62 |43 |2649 |17599 |1.08 |1 |1 |100 |---- |GOTERM_BP_ALL |GO:0050789~regulation of biological process |12 |0.7 |40 |4759 |15360 |0.97 |1 |1 |100 |---- |SP_PIR_KEYWORDS |zinc |5 |0.72 |43 |2007 |17599 |1.02 |1 |1 |100 |---- |GOTERM_MF_ALL |GO:0008270~zinc ion binding |5 |0.75 |36 |2400 |16968 |0.98 |1 |1 |100 |---- |SP_PIR_KEYWORDS |zinc-finger |4 |0.76 |43 |1629 |17599 |1 |1 |1 |100 |---- |GOTERM_BP_ALL |GO:0019222~regulation of metabolic process |7 |0.79 |40 |2975 |15360 |0.9 |1 |1 |100 |---- |SP_PIR_KEYWORDS |Transcription regulation |4 |0.8 |43 |1754 |17599 |0.93 |1 |1 |100 |---- |SP_PIR_KEYWORDS |Transcription |4 |0.81 |43 |1783 |17599 |0.92 |1 |1 |100 |---- |GOTERM_BP_ALL |GO:0045449~regulation of transcription |6 |0.81 |40 |2598 |15360 |0.89 |1 |1 |100 |---- |GOTERM_MF_ALL |GO:0046872~metal ion binding |8 |0.82 |36 |4312 |16968 |0.87 |1 |1 |100 |---- |GOTERM_BP_ALL |GO:0019219~regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process |6 |0.83 |40 |2658 |15360 |0.87 |1 |1 |100 |---- |GOTERM_MF_ALL |GO:0030528~transcription regulator activity |3 |0.84 |36 |1534 |16968 |0.92 |1 |1 |100 |---- |GOTERM_BP_ALL |GO:0006350~transcription |6 |0.84 |40 |2695 |15360 |0.85 |1 |1 |100 |---- |GOTERM_MF_ALL |GO:0043167~ion binding |8 |0.84 |36 |4397 |16968 |0.86 |1 |1 |100 |---- |GOTERM_BP_ALL |GO:0010468~regulation of gene expression |6 |0.85 |40 |2760 |15360 |0.83 |1 |1 |100 |---- |GOTERM_MF_ALL |GO:0043169~cation binding |7 |0.87 |36 |4006 |16968 |0.82 |1 |1 |100 |---- |GOTERM_MF_ALL |GO:0046914~transition metal ion binding |5 |0.87 |36 |2908 |16968 |0.81 |1 |1 |100 |---- |GOTERM_BP_ALL |GO:0031323~regulation of cellular metabolic process |6 |0.88 |40 |2873 |15360 |0.8 |1 |1 |100 |---- |GOTERM_BP_ALL |GO:0006355~regulation of transcription, DNA-dependent |5 |0.89 |40 |2432 |15360 |0.79 |1 |1 |100 |---- |GOTERM_BP_ALL |GO:0006351~transcription, DNA-dependent |5 |0.9 |40 |2487 |15360 |0.77 |1 |1 |100 |---- |GOTERM_BP_ALL |GO:0032774~RNA biosynthetic process |5 |0.9 |40 |2490 |15360 |0.77 |1 |1 |100 |---- |GOTERM_MF_ALL |GO:0003677~DNA binding |4 |0.9 |36 |2450 |16968 |0.77 |1 |1 |100 |---- |SP_PIR_KEYWORDS |dna-binding |3 |0.93 |43 |1748 |17599 |0.7 |1 |1 |100 |---- |GOTERM_BP_ALL |GO:0043283~biopolymer metabolic process |10 |0.96 |40 |5361 |15360 |0.72 |1 |1 |100 |---- |GOTERM_BP_ALL |GO:0016070~RNA metabolic process |5 |0.96 |40 |3020 |15360 |0.64 |1 |1 |100 |---- |GOTERM_MF_ALL |GO:0003676~nucleic acid binding |5 |0.96 |36 |3690 |16968 |0.64 |1 |1 |100 |---- |GOTERM_BP_ALL |GO:0006139~nucleobase, nucleoside, nucleotide and nucleic acid metabolic process |7 |0.97 |40 |4051 |15360 |0.66 |1 |1 |100 |---- |GOTERM_BP_ALL |GO:0010467~gene expression |6 |0.97 |40 |3686 |15360 |0.63 |1 |1 |100 |---- |GOTERM_CC_ALL |GO:0005634~nucleus |7 |0.97 |37 |4664 |15857 |0.64 |1 |1 |100 |---- |SP_PIR_KEYWORDS |nucleus |5 |0.99 |43 |3710 |17599 |0.55 |1 |1 |100 |---- |GOTERM_CC_ALL |GO:0043231~intracellular membrane-bound organelle |10 |1 |37 |7191 |15857 |0.6 |1 |1 |100 |---- |GOTERM_CC_ALL |GO:0043227~membrane-bound organelle |10 |1 |37 |7194 |15857 |0.6 |1 |1 |100 |---- |GOTERM_CC_ALL |GO:0044424~intracellular part |15 |1 |37 |9906 |15857 |0.65 |1 |1 |100 |---- |GOTERM_CC_ALL |GO:0043229~intracellular organelle |11 |1 |37 |8288 |15857 |0.57 |1 |1 |100 |---- |GOTERM_CC_ALL |GO:0043226~organelle |11 |1 |37 |8292 |15857 |0.57 |1 |1 |100 |---- |GOTERM_CC_ALL |GO:0005622~intracellular |15 |1 |37 |10544 |15857 |0.61 |1 |1 |100 |---- | | | | | | | | | | | |---- |Functional Group 15 |Median: 0.8662513767254609 |Geo: 0.88361465668396 | | | | | | | | |---- |Category |Term |Count |PValue |List Total |Pop Hits |Pop Total |Fold Enrichment |Bonferroni |Benjamini |FDR |---- |GOTERM_BP_ALL |GO:0044267~cellular protein metabolic process |8 |0.81 |40 |3482 |15360 |0.88 |1 |1 |100 |---- |GOTERM_BP_ALL |GO:0044260~cellular macromolecule metabolic process |8 |0.83 |40 |3534 |15360 |0.87 |1 |1 |100 |---- |GOTERM_BP_ALL |GO:0006464~protein modification process |4 |0.85 |40 |1804 |15360 |0.85 |1 |1 |100 |---- |GOTERM_BP_ALL |GO:0019538~protein metabolic process |8 |0.86 |40 |3691 |15360 |0.83 |1 |1 |100 |---- |GOTERM_BP_ALL |GO:0043412~biopolymer modification |4 |0.87 |40 |1877 |15360 |0.82 |1 |1 |100 |---- |GOTERM_BP_ALL |GO:0043687~post-translational protein modification |3 |0.91 |40 |1522 |15360 |0.76 |1 |1 |100 |---- |GOTERM_CC_ALL |GO:0043234~protein complex |3 |0.96 |37 |2115 |15857 |0.61 |1 |1 |100 |---- |GOTERM_CC_ALL |GO:0032991~macromolecular complex |3 |0.99 |37 |2609 |15857 |0.49 |1 |1 |100 |---- | | | | | | | | | | | |---- |Functional Group 16 |Median: 0.9612032324365326 |Geo: 0.8965362550566862 | | | | | | | | |---- |Category |Term |Count |PValue |List Total |Pop Hits |Pop Total |Fold Enrichment |Bonferroni |Benjamini |FDR |---- |GOTERM_BP_ALL |GO:0008152~metabolic process |23 |0.73 |40 |9181 |15360 |0.96 |1 |1 |100 |---- |GOTERM_BP_ALL |GO:0044237~cellular metabolic process |20 |0.79 |40 |8269 |15360 |0.93 |1 |1 |100 |---- |GOTERM_BP_ALL |GO:0044238~primary metabolic process |19 |0.87 |40 |8291 |15360 |0.88 |1 |1 |100 |---- |GOTERM_BP_ALL |GO:0043283~biopolymer metabolic process |10 |0.96 |40 |5361 |15360 |0.72 |1 |1 |100 |---- |GOTERM_BP_ALL |GO:0043170~macromolecule metabolic process |14 |0.97 |40 |7216 |15360 |0.75 |1 |1 |100 |---- |GOTERM_CC_ALL |GO:0044424~intracellular part |15 |1 |37 |9906 |15857 |0.65 |1 |1 |100 |---- |GOTERM_CC_ALL |GO:0005622~intracellular |15 |1 |37 |10544 |15857 |0.61 |1 |1 |100 |---- | | | | | | | | | | | |---- |Functional Group 17 |Median: 0.9355098519781113 |Geo: 0.9267703680488794 | | | | | | | | |---- |Category |Term |Count |PValue |List Total |Pop Hits |Pop Total |Fold Enrichment |Bonferroni |Benjamini |FDR |---- |SP_PIR_KEYWORDS |transport |3 |0.87 |43 |1432 |17599 |0.86 |1 |1 |100 |---- |GOTERM_BP_ALL |GO:0006810~transport |5 |0.93 |40 |2697 |15360 |0.71 |1 |1 |100 |---- |GOTERM_BP_ALL |GO:0051234~establishment of localization |5 |0.94 |40 |2788 |15360 |0.69 |1 |1 |100 |---- |GOTERM_BP_ALL |GO:0051179~localization |5 |0.97 |40 |3161 |15360 |0.61 |1 |1 |100 |---- | | | | | | | | | | | |---- |Functional Group 18 |Median: 0.9348568006971572 |Geo: 0.9279057981361349 | | | | | | | | |---- |Category |Term |Count |PValue |List Total |Pop Hits |Pop Total |Fold Enrichment |Bonferroni |Benjamini |FDR |---- |SP_PIR_KEYWORDS |transferase |3 |0.86 |43 |1398 |17599 |0.88 |1 |1 |100 |---- |GOTERM_MF_ALL |GO:0016740~transferase activity |3 |0.93 |36 |2040 |16968 |0.69 |1 |1 |100 |---- |GOTERM_CC_ALL |GO:0005737~cytoplasm |8 |1 |37 |6219 |15857 |0.55 |1 |1 |100 |---- | | | | | | | | | | | |---- |Functional Group 19 |Median: 0.9261389414215063 |Geo: 0.9334226746370794 | | | | | | | | |---- |Category |Term |Count |PValue |List Total |Pop Hits |Pop Total |Fold Enrichment |Bonferroni |Benjamini |FDR |---- |GOTERM_MF_ALL |GO:0032553~ribonucleotide binding |3 |0.92 |36 |1933 |16968 |0.73 |1 |1 |100 |---- |GOTERM_MF_ALL |GO:0032555~purine ribonucleotide binding |3 |0.92 |36 |1933 |16968 |0.73 |1 |1 |100 |---- |GOTERM_MF_ALL |GO:0017076~purine nucleotide binding |3 |0.93 |36 |2016 |16968 |0.7 |1 |1 |100 |---- |GOTERM_MF_ALL |GO:0000166~nucleotide binding |3 |0.96 |36 |2314 |16968 |0.61 |1 |1 |100 |---- |} ** '''NOTICE GO TERM CLUSTER 1''' ** GPCRs! Includes mas gene, an oncogene. ** Also, membrane proteins, cell-cell adhesion, stress response, and developmental genes. ** Only GPCRs and membrane proteins have good P Values. Should pay attention to these. * Gene Functional Classification is more revealing. ** Only two gene groups appear ** The first is GPCR-heavy, including mas ** The second is very low-scoring, but deals with DNA binding and transcription Gene Group 1: (Score 1.68) 1 ILMN_1759087 olfactory receptor, family 10, subfamily v, member 1 2 ILMN_1743329 retinal pigment epithelium-derived rhodopsin homolog 3 ILMN_1747683 aquaporin 4 4 ILMN_1731745 ninjurin 2 5 ILMN_1741371 transmembrane protein 8 (five membrane-spanning domains) 6 ILMN_1772727 g protein-coupled receptor 75 7 ILMN_1780465 c-type lectin domain family 5, member a 8 ILMN_1748338 g protein-coupled receptor 85 9 ILMN_1714980 mas-related gpr, member d 10 ILMN_1750497 g protein-coupled receptor 109a Gene Group 2: (Score 0.1) 1 ILMN_1726928 transcription elongation factor a (sii), 3 2 ILMN_1706590 myeloid/lymphoid or mixed-lineage leukemia (trithorax homolog, drosophila); translocated to, 1 3 ILMN_1662021 hypothetical protein flj20403 similar to zinc finger protein 326 4 ILMN_1754553 mediator of rna polymerase ii transcription, subunit 19 homolog (yeast) 5 ILMN_1700766 flj45850 protein
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